Figure 2 | Scientific Reports

Figure 2

From: Culture of haploid blastocysts in FGF4 favors the derivation of epiblast stem cells with a primed epigenetic and transcriptional landscape

Figure 2

Epigenomic profiling of maEpiSCs. (A) Heat map of correlation matrix of histone modification, epigenetic regulator, and transcriptional regulator densities at 2 kb genomic intervals between maEpiSCs, conventional EpiSCs, MEFs, and ESCs. Pair-wise affinities between data generated in this study and public data are shown in a heat map17,39,40,41. Pair-wise affinity values were generated using AutoSOME42. (B) H3K4me3 and H3K27me3 densities in conventional EpiSCs (E3), maEpiSC, ES cells, and MEFs are shown in boxplots at conventional EpiSC H3K4me3-peaks (top) and at H3K4me3/H3K27me3 bivalent peaks (bottom). (C) H3K4me3 densities at EpiSC-peaks shown in scatter plots (reads per base per million reads (RPBM); log2 normalized tag density). (D) Evaluation of H3K4me3 densities in maEpiSCs, conventional EpiSCs, ESCs and MEFs using principal component analysis (PCA). (E) H3K4me3 and H3K27me3 densities represented as heat maps at transcriptional start site (TSS) regions. (F) Overlap between ChIP-enriched peaks in maEpiSCs and ESCs, conventional EpiSCs and MEFs are shown in Venn diagrams. (G) UCSC genome browser views of H3K27me3 and H3K4me3 ChIP-Seq data in maEpiSCs, conventional EpiSCs, ESCs, and MEFs.

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